Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtatcccctcttgactgtagaccaaaaaacacaagatctctacctcttaattctatcattgtccttgaattcatgacaatttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG

Basic information

species Vitis vinifera
transcript Vv06s0004g02140.t01
intron # 10
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GRMZM5G870170_T02 (Zea mays), 3'ss of exon 10
----------gtatcccctcttgactgtagaccaaaaaacacaagatctctacctcttaattctatcattgtccttgaattcatgacaatttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG
            |   |  | ||  |||| |   ||    |    |    || ||||||| | ||   || ||  |  |||  |      | | |||| |     ||||||||     |||||||||| |||||| ||||||| ||||||||||||||  |||| |  || ||||| ||||| | |||| |||| || || |||
tgcttccatgtcaaaacgacatgtatgtaaaatgaagtggagggtagtagtatctcttaaatatac--ttatctat--atttgtttttcctcccttgtgtg----cagTTTGTCTGCCTTACTCAACCAATCAACGCTCTGGCTTTTGTTTTTGATGGTATCAATTACGGAGCATCAGATTTCGGATATGCTGCCTACTCAATG

upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA15G03930.1 (Glycine max), 3'ss of exon 10
----gtatcccctcttgactgtagaccaaaaaacacaagatctctacct-cttaattct---atcattgtccttgaattcatgacaat----ttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG
     | | |  | |  | |    |  |  | | |   |   | || || |  || ||    | ||  |    | |  |  | ||| |    ||| || |||| || |||||||||||||| ||||||||  | || ||| | || |||||||||||||| ||||||||||| |||||||||||||||||||| || |  ||||||
gtaattgttcattttcaaattggaa--aggatatattggtgttgtatcttcccaactccctaagcaaggagacttacatagttacattcatgttcattctttcttaccagTTTGTTGCAGTCACTCAACCCCTGAATTCTATAGCATTTGTTTTTGATGGTGTCAACTTTGGGGCATCTGATTTTGCATATTCAGCCTTCTCCATG

upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA19G43330.1 (Glycine max), 3'ss of exon 8
gtatcccctcttgactgtagaccaaaaaacacaagatctctacct-cttaattctat---cattgtccttgaattcatgacaat----ttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG----
|||     || |      |    |||  | |   |   | || || |  ||  |  |   ||  |    | |  |  | ||| |    ||| || |||| || |||||||||| ||| ||||||||  | || ||| | || ||||||||| |||| ||||||||||| |||||||||||||||||||| || |  ||||||    
gtaattgttcattttcaaattggaaaggatattggtgttgtatcttcccaaccccctaagcagggagacttacatagttacattcatgttcattctttcttaccagTTTGTTGTAGTCACTCAACCCCTGAATTCTTTAGCATTTGTTTTTTATGGTGTCAACTTTGGGGCATCTGATTTTGCATATTCAGCCTTCTCCATGGTGA

upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA13G41460.1 (Glycine max), 3'ss of exon 10
gtatcccctcttgactgtagaccaaaaaacacaagatctctacctctt-aattctat--cattgtccttgaattcatgacaat----ttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG
|||      | |      |    |||  | |   |   |||| || |  ||  | ||  ||  ||   | |  |  | ||| |    ||| |  |||  || |||||| ||||||| ||||||||  | || ||| | || ||||| |||||||| ||||||||||| |||||||||||||||||||| || |  ||||||
gtaattatccattttcaaattggaaaggatattggtattctatctttccaaccccatagcagggtgacttacatagttacattcatgttcatccttttttaccagTTTATTGCAGTCACTCAACCCCTGAATTCTTTAGCATTTGTATTTGATGGTGTCAACTTTGGGGCATCTGATTTTGCATATTCAGCCTTCTCCATG

upper sequence: Vv06s0004g02140.t01 (Vitis vinifera), 3'ss of exon 10
lower sequence: GLYMA12G14270.1 (Glycine max), 3'ss of exon 8
gtatcccctcttgactgtagaccaaaaaacacaagatctcta-cctcttaattctat---cattgtccttgaattcatgacaat----ttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG
|||     || |      |    |||  | |   |   | || | ||  ||  |  |   ||  |    | |  |  | ||| |    ||| || |||| || |||||||||||||| ||||||||  | || ||| | || ||||||||| ||||  |||||||||| |||||||||||||||||||| || |  ||||||
gtaattgttcattttcaaattggaaaggatattggtgttgtatcttcccaaccccctaagcagggagacttacatagttacattcatgttcattctttcttaccagTTTGTTGCAGTCACTCAACCCCTGAATTCTTTAGCATTTGTTTTTTATGGTATCAACTTTGGGGCATCTGATTTTGCATATTCAGCCTTCTCCATG

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|294967324|gb|GW836678.1|GW836678
EST:     TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCG                         TTTGTTGCAGTTACTCAAGCTATCAACTCTCTGGCCTTT-TGTTTCGATGG
genomic: TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCGgtatcccctc ... ttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTT-GATGG
EST: gi|30252403|gb|CB969954.1|CB969954
EST:     TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCG                         TTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
genomic: TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCGgtatcccctc ... ttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
EST: gi|110698510|gb|EE076088.1|EE076088
EST:     TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCG                         TTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
genomic: TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCGgtatcccctc ... ttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
EST: gi|33405457|gb|CF211084.1|CF211084
EST:     TGTTCACAAAGGATCTCAGTGTCCTCTATCTCATCAGTATAGGCATTCCG                         TTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
genomic: TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCGgtatcccctc ... ttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
EST: gi|46918193|gb|CN547522.1|CN547522
EST:     TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCG                         TTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
genomic: TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCGgtatcccctc ... ttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGG
EST: gi|30301245|gb|CB978039.1|CB978039
EST:     TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCG                         TTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGGTTTTGAT
genomic: TGTTCACAAAGGATCTCAGTGTCCTCCATCTCATCAGTATAGGCATTCCGgtatcccctc ... ttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ctcttaattctatcattgtccttgaattcatgacaatttctttgtttcatatcagTTTGTTGCAGTTACTCAACCTATCAACTCTCTGGCCTTTGTTTTTGATGGGGTCAACTTTGGTGCATCTGATTTTGCATATTCTGCATATTCCATG
 tcttaat  putative branch site (score: 3)
                                    tttctttgtttcat  putative PPT
                                  aatttcttt  TA-rich tract